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Genomic determinants for initiation and length of natural antisense transcripts in Entamoeba histolytica.
Mornico, Damien; Hon, Chung-Chau; Koutero, Mikael; Weber, Christian; Coppee, Jean-Yves; Dillies, Marie-Agnes; Guillen, Nancy.
Affiliation
  • Mornico D; Hub de Bioinformatique et Biostatistique - Département Biologie Computationnelle, CNRS USR 3756, Institut Pasteur, Paris, France. damien.mornico@pasteur.fr.
  • Hon CC; Unité Biologie Cellulaire du Parasitisme, Institut Pasteur, Paris, France.
  • Koutero M; Institut National de La Santé Et de La Recherche Médicale, INSERM U786, Paris, France.
  • Weber C; Laboratory for Genome Information Analysis, RIKEN Center for Integrative Medical Sciences, 1-7-22 Suehiro-cho. Tsurumi-ku, Yokohama, 230-0045, Japan.
  • Coppee JY; Plate-forme Transcriptome et Epigénome, Institut Pasteur, Paris, France.
  • Dillies MA; Unité Biologie Cellulaire du Parasitisme, Institut Pasteur, Paris, France.
  • Guillen N; Institut National de La Santé Et de La Recherche Médicale, INSERM U786, Paris, France.
Sci Rep ; 10(1): 20190, 2020 11 19.
Article in En | MEDLINE | ID: mdl-33214622
Natural antisense transcripts (NAT) have been reported in prokaryotes and eukaryotes. While the functions of most reported NATs remain unknown, their potentials in regulating the transcription of their counterparts have been speculated. Entamoeba histolytica, which is a unicellular eukaryotic parasite, has a compact protein-coding genome with very short intronic and intergenic regions. The regulatory mechanisms of gene expression in this compact genome are under-described. In this study, by genome-wide mapping of RNA-Seq data in the genome of E. histolytica, we show that a substantial fraction of its protein-coding genes (28%) has significant transcription on their opposite strand (i.e. NAT). Intriguingly, we found the location of transcription start sites or polyadenylation sites of NAT are determined by the specific motifs encoded on the opposite strand of the gene coding sequences, thereby providing a compact regulatory system for gene transcription. Moreover, we demonstrated that NATs are globally up-regulated under various environmental conditions including temperature stress and pathogenicity. While NATs do not appear to be consequences of spurious transcription, they may play a role in regulating gene expression in E. histolytica, a hypothesis which needs to be tested.
Subject(s)

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Transcription, Genetic / RNA, Antisense / Entamoeba histolytica Language: En Journal: Sci Rep Year: 2020 Document type: Article Affiliation country: France Country of publication: United kingdom

Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Transcription, Genetic / RNA, Antisense / Entamoeba histolytica Language: En Journal: Sci Rep Year: 2020 Document type: Article Affiliation country: France Country of publication: United kingdom